
\documentclass{upenndiss}
% The default font size is 12pt, but can be changed in the normal way:
% \documentclass[11pt]{upenndiss}
%
% The Penn guidelines allow smaller sizes, but be warned that the lines
% are too long for anything smaller than 12pt to be easily readable (see any
% introduction to designing text layouts).

% Add packages and definitions you want to use here:
\usepackage{times}
\usepackage{epsfig, bbm, subfigure} 
%\usepackage[mathbf,mathcal]{euler}
\usepackage{pifont,epsfig}
% \usepackage[x11names,rgb]{xcolor}
\usepackage{tikz}
\usetikzlibrary{snakes}
\usetikzlibrary{arrows}
\usetikzlibrary{shapes}
\usetikzlibrary{backgrounds}


\usepackage[
pdfauthor={Hari Sundar},
pdftitle={ Ph.D. Thesis },
pdfcreator={pdftex},
pdfsubject={Computer Aided Diagnosis of Cardiomyopathies},
pdfkeywords={Cardiomyopathy, CAD, registration},
pagebackref  = {true},
hyperindex = {true},
colorlinks = {true},
linkcolor = {blue},
citecolor = {blue}
]{hyperref} 
%\usepackage{cite}

\usepackage{amsmath}
\usepackage{amsfonts}
\usepackage{amssymb}
%\usepackage{algorithmic}
%\usepackage{algorithm}

\renewcommand{\div}{{\boldsymbol{\nabla}}}
\input{mac-gen}
\input{mac-fem}
\input{mac-vf}
%------------------------------------------------------------
\newtheorem{algorithm}{\textbf{Algorithm}}
\newtheorem{acknowledgement}{Acknowledgement}
\newtheorem{axiom}{Axiom}
\newtheorem{lemma}{Lemma}
\newtheorem{proof}{Proof}
\newtheorem{case}{Case}
\newtheorem{claim}{Claim}
\newtheorem{conclusion}{Conclusion}
\newtheorem{condition}{Condition}
\newtheorem{conjecture}{Conjecture}
\newtheorem{criterion}{Criterion}
\newtheorem{example}{Example}
\newtheorem{exercise}{Exercise}

\newtheorem{notation}{Notation}
\newtheorem{problem}{Problem}

\newtheorem{remark}{Remark}
\newtheorem{prop}{Property}
\newtheorem{define}{Definition}
\newtheorem{solution}{Solution}
\newtheorem{summary}{Summary}
\numberwithin{equation}{section}
%\newenvironment{proof}{
%  \noindent\textbf{Proof}\ }{\hspace*{\fill}
%  \begin{math}\Box\end{math}\medskip}
%------------------------------------------------------------
\newcommand{\pe}{\psi}
\newcommand{\argmax}[1]{\ensuremath{\arg \,\underset{#1}{\max}\;}}
\def\d{\delta} 
\def\ds{\displaystyle} 
\def\e{{\epsilon}} 
\def\eb{\bar{\eta}}  
\def\enorm#1{\|#1\|_2} 
\def\Fp{F^\prime}  
\def\Kc{{\cal K}} 
\def\norm#1{\|#1\|} 
\def\wb{{\bar w}} 
\def\zb{{\bar z}} 


\def\bfE{\mbox{\boldmath$E$}}
\def\bfG{\mbox{\boldmath$G$}}




%%%%%%%%%%%%%%%%%%%  The title pages  %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%

% Note: Use \protect\\ if you need a manual line break
%\title{A Really Clever Title: \protect\\ The Second Line of Your Title}
\title{Spatio-Temporal Deformation Analysis of Cardiac MR Images}

% Fill in here as appropriate.  Separate multiple names with \and  
\author{Hari Sundar}
\supervisor{Christos Davatzikos}
\gradchair{Susan Margulies}
\committee{George Biros \and Victor Ferrari \and Harold Litt}

% Change to \copyrighttrue if you want to generate a copyright page.
\copyrightfalse  
% \copyrightyear{2000}  % Defaults to the current year if undefined.

\department{Bioengineering}


%%%%%%%%%%%%%%%%%%%  Now for the front matter %%%%%%%%%%%%%%%%%%%%%%%%%

% Front matter elements are required to appear in a specific order.  In this
% section you define the parts of your front matter, and the style will
% automatically put them in the proper order.


% Declare the sections that you use.  Only Abstract is obligatory.  
%
\abstractfile{abstract}
\acknowledgementsfile{acknow}
% \dedicationfile{dedication}
% \prefacefile{preface}

% ALTERNATELY, if you have a really short Dedication (no more than one
% paragraph) you can place it in the main file, with the command
% \dedication{...}, INSTEAD of using \dedicationfile.
\dedication{\center
This example is dedicated to all those users \\
who hate to read manuals.
}

\begin{document}
% The following command now generates all your starting pages:
\FrontMatter

\include {introduction}
\include {model}
\include {octree}
\include {inverse}
\include {results}	     

% And the bibliography

\bibliographystyle{plain}
\bibliography{thesis}

\end{document}

